miRNA display CGI


Results 1 - 20 of 50 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
2636 3' -61.8 NC_001491.2 + 31507 0.66 0.654172
Target:  5'- cCGCCACCGGCCaCCc---GCCA-ACCu -3'
miRNA:   3'- aGCGGUGGUCGG-GGagacCGGUcUGG- -5'
2636 3' -61.8 NC_001491.2 + 32512 0.66 0.654172
Target:  5'- gCGuCCGCgaGGCCaaUCUGGCCAaGACg -3'
miRNA:   3'- aGC-GGUGg-UCGGggAGACCGGU-CUGg -5'
2636 3' -61.8 NC_001491.2 + 39442 0.66 0.650228
Target:  5'- -aGCCGCgGGCCCCagucgccugggugCUGGCCc--CCg -3'
miRNA:   3'- agCGGUGgUCGGGGa------------GACCGGucuGG- -5'
2636 3' -61.8 NC_001491.2 + 140352 0.66 0.648255
Target:  5'- cCGCCguuaucggucacagcACCGGCCgCUCcGGUuuGACCu -3'
miRNA:   3'- aGCGG---------------UGGUCGGgGAGaCCGguCUGG- -5'
2636 3' -61.8 NC_001491.2 + 32577 0.66 0.644309
Target:  5'- cCGCCggGCCGGagCCCUCaccGGCUccccaaGGACCa -3'
miRNA:   3'- aGCGG--UGGUCg-GGGAGa--CCGG------UCUGG- -5'
2636 3' -61.8 NC_001491.2 + 58533 0.66 0.644309
Target:  5'- aUCGCUAgCAcggcGUCCCUgacgCUGGCCAGGg- -3'
miRNA:   3'- -AGCGGUgGU----CGGGGA----GACCGGUCUgg -5'
2636 3' -61.8 NC_001491.2 + 132986 0.66 0.634437
Target:  5'- aUUGCCACCAGUUCUUCUuugguguaGCCuGGACUc -3'
miRNA:   3'- -AGCGGUGGUCGGGGAGAc-------CGG-UCUGG- -5'
2636 3' -61.8 NC_001491.2 + 56667 0.66 0.634437
Target:  5'- aUGCCAugguuuccguCCAgGCCCCgaaUCUGGCC--ACCg -3'
miRNA:   3'- aGCGGU----------GGU-CGGGG---AGACCGGucUGG- -5'
2636 3' -61.8 NC_001491.2 + 2585 0.66 0.634437
Target:  5'- cCGCCACCAGCUCggggGGacagUAGGCCg -3'
miRNA:   3'- aGCGGUGGUCGGGgagaCCg---GUCUGG- -5'
2636 3' -61.8 NC_001491.2 + 98961 0.66 0.614694
Target:  5'- aCGCCgGCCuGGUCCCcCUGGgCGGcuGCCg -3'
miRNA:   3'- aGCGG-UGG-UCGGGGaGACCgGUC--UGG- -5'
2636 3' -61.8 NC_001491.2 + 64509 0.67 0.608779
Target:  5'- gCGCCGCCAcacgucucuggggguGUCuCCUCcGGCCAcGGCg -3'
miRNA:   3'- aGCGGUGGU---------------CGG-GGAGaCCGGU-CUGg -5'
2636 3' -61.8 NC_001491.2 + 84028 0.67 0.604838
Target:  5'- -gGCgGCUggcGCCCCUCUGGUUucaggGGACUa -3'
miRNA:   3'- agCGgUGGu--CGGGGAGACCGG-----UCUGG- -5'
2636 3' -61.8 NC_001491.2 + 141195 0.67 0.595001
Target:  5'- cUCGCUgGCUGGCCgCggCUGGauaCAGACCa -3'
miRNA:   3'- -AGCGG-UGGUCGGgGa-GACCg--GUCUGG- -5'
2636 3' -61.8 NC_001491.2 + 11488 0.67 0.595001
Target:  5'- -gGCUGCCuGGCCCCUCUggggugggGGUCAGGg- -3'
miRNA:   3'- agCGGUGG-UCGGGGAGA--------CCGGUCUgg -5'
2636 3' -61.8 NC_001491.2 + 34406 0.67 0.585189
Target:  5'- -aGCCGgCGGCCCa---GGCCGGAgCCu -3'
miRNA:   3'- agCGGUgGUCGGGgagaCCGGUCU-GG- -5'
2636 3' -61.8 NC_001491.2 + 90540 0.67 0.585189
Target:  5'- aUCGUgGCUcugaaaaaCCCCUCUGGCCcaGCCa -3'
miRNA:   3'- -AGCGgUGGuc------GGGGAGACCGGucUGG- -5'
2636 3' -61.8 NC_001491.2 + 114238 0.67 0.585189
Target:  5'- aUUGCCAac--CCCCUCUgGGCCcuGGCCa -3'
miRNA:   3'- -AGCGGUggucGGGGAGA-CCGGu-CUGG- -5'
2636 3' -61.8 NC_001491.2 + 4681 0.67 0.579317
Target:  5'- -aGCCAUCcccgcgggcgguucgGGCCUCUCcagcgucuUGGCCAGAUUg -3'
miRNA:   3'- agCGGUGG---------------UCGGGGAG--------ACCGGUCUGG- -5'
2636 3' -61.8 NC_001491.2 + 11913 0.67 0.575409
Target:  5'- -gGCCACCAcCCCCUCgaccggcacgcGGCaCGGcACCu -3'
miRNA:   3'- agCGGUGGUcGGGGAGa----------CCG-GUC-UGG- -5'
2636 3' -61.8 NC_001491.2 + 16210 0.67 0.565666
Target:  5'- -gGCCGCCGaugcGCCCCcCUGuCCGGAgCg -3'
miRNA:   3'- agCGGUGGU----CGGGGaGACcGGUCUgG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.